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Crocc ciliary rootlet coiled-coil, rootletin [ Mus musculus (house mouse) ]

Gene ID: 230872, updated on 8-Feb-2024

Summary

Official Symbol
Croccprovided by MGI
Official Full Name
ciliary rootlet coiled-coil, rootletinprovided by MGI
Primary source
MGI:MGI:3529431
See related
Ensembl:ENSMUSG00000040860 AllianceGenome:MGI:3529431
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Summary
Enables actin binding activity; kinesin binding activity; and structural molecule activity. A structural constituent of cytoskeleton. Acts upstream of or within ciliary basal body organization; establishment of organelle localization; and tissue homeostasis. Located in several cellular components, including cytoskeleton; photoreceptor inner segment; and subapical part of cell. Is expressed in brain; metanephros; and retina layer. Orthologous to human CROCC (ciliary rootlet coiled-coil, rootletin). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in ovary adult (RPKM 11.7), cortex adult (RPKM 10.1) and 24 other tissues See more
Orthologs
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Genomic context

See Crocc in Genome Data Viewer
Location:
4 D3; 4 73.31 cM
Exon count:
40
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (140743948..140787927, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (141016637..141060615, complement)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene ATPase type 13A2 Neighboring gene microfibrillar-associated protein 2 Neighboring gene STARR-seq mESC enhancer starr_11885 Neighboring gene STARR-positive B cell enhancer ABC_E4695 Neighboring gene STARR-positive B cell enhancer ABC_E10272 Neighboring gene NECAP endocytosis associated 2 Neighboring gene STARR-positive B cell enhancer ABC_E3532 Neighboring gene ribosomal protein S2 pseudogene

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (1)  1 citation
  • Endonuclease-mediated (3) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Clone Names

  • KIAA0445

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables actin binding IDA
Inferred from Direct Assay
more info
PubMed 
enables kinesin binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables structural constituent of cytoskeleton IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables structural molecule activity IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within cell cycle IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within cell projection organization IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within cellular homeostasis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in centriole-centriole cohesion ISO
Inferred from Sequence Orthology
more info
 
involved_in centrosome cycle IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in centrosome cycle ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within ciliary basal body organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within epithelial structure maintenance IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within establishment of localization in cell IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within establishment of organelle localization IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within photoreceptor cell maintenance IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of cilium assembly ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of protein localization to cilium ISO
Inferred from Sequence Orthology
more info
 
involved_in protein localization ISO
Inferred from Sequence Orthology
more info
 
involved_in protein localization to organelle ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in 9+2 motile cilium IDA
Inferred from Direct Assay
more info
PubMed 
located_in actin cytoskeleton ISO
Inferred from Sequence Orthology
more info
 
located_in cell projection IEA
Inferred from Electronic Annotation
more info
 
is_active_in centriole IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in centriole IDA
Inferred from Direct Assay
more info
PubMed 
located_in centriole ISO
Inferred from Sequence Orthology
more info
PubMed 
is_active_in centrosome IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in centrosome ISO
Inferred from Sequence Orthology
more info
 
located_in ciliary rootlet IDA
Inferred from Direct Assay
more info
PubMed 
located_in ciliary rootlet IMP
Inferred from Mutant Phenotype
more info
PubMed 
located_in cilium IEA
Inferred from Electronic Annotation
more info
 
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
 
located_in cytoskeleton IEA
Inferred from Electronic Annotation
more info
 
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
located_in photoreceptor inner segment IDA
Inferred from Direct Assay
more info
PubMed 
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
 
located_in subapical part of cell IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
rootletin
Names
ciliary rootlet coiled-coil protein

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001145958.2NP_001139430.1  rootletin isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (2) is shorter at the N-terminus and lacks an alternate internal segment compared to isoform 1.
    Source sequence(s)
    AL645625
    Consensus CDS
    CCDS51346.1
    UniProtKB/Swiss-Prot
    Q8CJ40
    Related
    ENSMUSP00000095425.3, ENSMUST00000097816.9
    Conserved Domains (4) summary
    COG1196
    Location:9271717
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    TIGR02168
    Location:5901262
    SMC_prok_B; chromosome segregation protein SMC, common bacterial type
    pfam15035
    Location:34171
    Rootletin; Ciliary rootlet component, centrosome cohesion
    cl19219
    Location:820888
    DUF342; Protein of unknown function (DUF342)
  2. NM_172122.3NP_742120.2  rootletin isoform 1

    See identical proteins and their annotated locations for NP_742120.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AL645625
    Consensus CDS
    CCDS18861.1
    UniProtKB/Swiss-Prot
    A2AA81, Q7TQL2, Q80U01, Q8CJ40, Q8R0B9
    Related
    ENSMUSP00000099549.4, ENSMUST00000102491.10
    Conserved Domains (4) summary
    TIGR02168
    Location:89931
    SMC_prok_B; chromosome segregation protein SMC, common bacterial type
    pfam01576
    Location:7031802
    Myosin_tail_1; Myosin tail
    pfam15035
    Location:158335
    Rootletin; Ciliary rootlet component, centrosome cohesion
    cl19219
    Location:9841052
    DUF342; Protein of unknown function (DUF342)

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000070.7 Reference GRCm39 C57BL/6J

    Range
    140743948..140787927 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006538800.5XP_006538863.1  rootletin isoform X1

    See identical proteins and their annotated locations for XP_006538863.1

    Conserved Domains (3) summary
    COG1196
    Location:10171807
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    TIGR02168
    Location:6801352
    SMC_prok_B; chromosome segregation protein SMC, common bacterial type
    pfam15035
    Location:84261
    Rootletin; Ciliary rootlet component, centrosome cohesion
  2. XM_006538801.3XP_006538864.1  rootletin isoform X1

    See identical proteins and their annotated locations for XP_006538864.1

    Conserved Domains (3) summary
    COG1196
    Location:10171807
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    TIGR02168
    Location:6801352
    SMC_prok_B; chromosome segregation protein SMC, common bacterial type
    pfam15035
    Location:84261
    Rootletin; Ciliary rootlet component, centrosome cohesion
  3. XM_006538802.4XP_006538865.1  rootletin isoform X2

    Conserved Domains (3) summary
    COG1196
    Location:10011791
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    TIGR02168
    Location:6641336
    SMC_prok_B; chromosome segregation protein SMC, common bacterial type
    pfam15035
    Location:117245
    Rootletin; Ciliary rootlet component, centrosome cohesion
  4. XM_036164085.1XP_036019978.1  rootletin isoform X3

    Conserved Domains (4) summary
    PRK09039
    Location:12861433
    PRK09039; peptidoglycan -binding protein
    TIGR02168
    Location:5931312
    SMC_prok_B; chromosome segregation protein SMC, common bacterial type
    pfam15921
    Location:88641
    CCDC158; Coiled-coil domain-containing protein 158
    pfam15035
    Location:158335
    Rootletin; Ciliary rootlet component, centrosome cohesion

RNA

  1. XR_004941878.1 RNA Sequence

  2. XR_881420.4 RNA Sequence